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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

AGTCCAGAAGATGTTGACAAGCTTCGGAGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGAgtatcctaaacaattttattgttagagtttcatttggactatctattatatatttagcttttgatcacttgagttaagacaactactgacaaaattgtctgagtgaggaagtacactgttaattccttgacttgtatgtccag

Basic information

species Vitis vinifera
transcript Vv00s0250g00020.t01
intron # 6
splice site 5'
intron type U12 (go to U12 genes for details)

Orthologous splice sites


 atgc   intronic sequence     ATGC   exonic sequence


upper sequence: Vv00s0250g00020.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GRMZM2G052546_T01 (Zea mays), 5'ss of exon 6
AGTCCAGAAGATGTTGACAAGCTTCGGAGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGAgtatcctaaacaattttattgtta-gagtttcatttggactatctattatat--atttagcttttgatcacttgagttaagacaactactgacaaaattgtctgagtgaggaagtacactgttaattccttgacttgtatgtccag
||||||   |||||||| ||||||||||  ||||| || |||||  | || ||||| || |||||||||||||||||||||||  |  ||  || |||| | | || || |   |    |||| |   |    | | || | |||  |||   |   |    ||   | |    ||||                                             
AGTCCACTTGATGTTGATAAGCTTCGGAAGATTGGTGTCAAAACTGTATTCTGCTTGCAGCAAGATTCAGATCTTGAgtatccccactaacatt-ttgtaacgcgtctcttaaagctagtctactgatttggctaaactctcgatagcttctttctcgttttctttggtcccgcttgt---------------------------------------------

upper sequence: Vv00s0250g00020.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA10G34370.1 (Glycine max), 5'ss of exon 6
AGTCCAGAAGATGTTGACAAGCTTCGGAGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGAgtatcctaaacaattttattgttagagtttcatttggactatctattatatatttagcttttgatcacttgagttaagacaactactgacaaaattgtctgagtgaggaagtacactgttaattccttgacttgtatgtccag
| ||| |||||||| |||||| | || || ||||| |||||||| || ||||||||||||||||||||||| |||||||||||||| || |||  ||  || || |||| ||  | ||| |   | | || |    |   | | | | | ||||   | ||| ||| |  ||||| |   |    || |||   |                         
ACTCCTGAAGATGTAGACAAGTTGCGTAGAATTGGAGTGAAAACTATATTTTGCTTACAACAAGATTCAGACCTTGAgtatcctaatcagtttctttaata-agattcactttcagtatttgagacaaatatgaaat---acctcat-atttaatctagctagtga-accattgtgtttctttacaactacttag-------------------------

upper sequence: Vv00s0250g00020.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: GLYMA20G33190.1 (Glycine max), 5'ss of exon 6
AGTCCAGAAGATGTTGACAAGCTTCGGAGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGAgtatcctaaacaattttattgttagagtttcatttggactatctattatatatttagcttttgatcacttgagttaagacaactactgacaaaattgtctgagtgaggaagtacactgttaattccttgacttgtatgtccag
| ||| |||||||| |||||| |  | || ||||| |||||||| || |||||||||||||||||| |||| |||||||||||||| || |||  ||  || || |||| ||  | ||| |   | | || |    |   | ||| | | ||||   | | | ||| |  |||||     |    || |||   |                         
ACTCCTGAAGATGTAGACAAGTTGTGTAGAATTGGAGTGAAAACTATATTTTGCTTACAACAAGATCCAGACCTTGAgtatcctaatcagtttgtttaata-agattcactttcagtatttga-acaaatatgaaat---accacat-atttaatctagcaagtga-accattgtggttctttacaactacttag-------------------------

upper sequence: Vv00s0250g00020.t01 (Vitis vinifera), 5'ss of exon 6
lower sequence: AT3G52180.1 (Arabidopsis thaliana), 5'ss of exon 5
AGTCCAGAAGATGTTGACAAGCTTCGGAGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGAgtatcctaaacaattttattgttagagtttcatttggactatctattatatatttagcttttgatcac-ttgagttaagacaactactgacaaaattgtctg-agtgaggaagtacactgttaattccttgacttgtatgtccag
|  || |||||||||||||||||||| |  ||||| || |||||||| |||||||| ||||||||| |||| || |||||||||    ||      | ||   ||| |||   || |||  ||| | | || | ||||   || | |||||| | ||           | |||  |||| ||||  |||   |      ||| | |  |             
ACCCCTGAAGATGTTGACAAGCTTCGTAAAATTGGAGTTAAAACCATATTTTGCTTGCAACAAGATCCAGACCTGGAgtatccttccaaagccctctttttctgtt-cat---gattatg-attttgttttca-ctttccttcgcattgagtgagga-----------agaatgatctgcagtgcagaatgccttgaccaatccttccag------------

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|37188932|gb|CF608281.1|CF608281
EST:     AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGA                         ATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
genomic: AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGAgtatcctaaa ... gtatgtccagATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
EST: gi|71860017|gb|DT009072.1|DT009072
EST:     AGTATTGGGGTGAAAACCATTTTTTGCGTACAACAAGATTCAGATCTTGA                         ATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
genomic: AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGAgtatcctaaa ... gtatgtccagATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
EST: gi|110731715|gb|EE106367.1|EE106367
EST:     AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGA                         ATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
genomic: AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGAgtatcctaaa ... gtatgtccagATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
EST: gi|110725728|gb|EE102561.1|EE102561
EST:     AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGA                         ATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
genomic: AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGAgtatcctaaa ... gtatgtccagATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
EST: gi|110390476|gb|EC955386.1|EC955386
EST:     AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGA                         ATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
genomic: AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGAgtatcctaaa ... gtatgtccagATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
EST: gi|27582920|gb|CB005615.1|CB005615
EST:     AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGA                         ATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
genomic: AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGAgtatcctaaa ... gtatgtccagATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
EST: gi|110719002|gb|EE096483.1|EE096483
EST:     AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGA                         ATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
genomic: AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGAgtatcctaaa ... gtatgtccagATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
EST: gi|71858350|gb|DT007405.1|DT007405
EST:     AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGA                         ATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
genomic: AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGAgtatcctaaa ... gtatgtccagATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
EST: gi|110723499|gb|EE100881.1|EE100881
EST:     AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGA                         ATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA
genomic: AGTATTGGGGTGAAAACCATTTTTTGCTTACAACAAGATTCAGATCTTGAgtatcctaaa ... gtatgtccagATATTTTGGAGTTGATATCAATGCCATAATAGAATATGCCAATACATTTGA